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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagttgttttccttgtcctatctattccagattatagtttcgggatattatatgttgattcatttcatgttcagATAATATGCTGGGTTTTGGGGGAATATGGAACAGCAGATGGAAAATATTCAGCTTCTTATATTATTGGGAAGTTGTGTGATGTGGCAGAGGCCCACCTCA

Basic information

species Zea mays
transcript GRMZM2G146697_T03
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G146697_T03 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os01g68750.1 (Oryza sativa), 3'ss of exon 7
---------gtagttgttttccttgtcctatc-tattccagattatagtttcgg-gatattatatgttgattcatttcatgttcagATAATATGCTGGGTTTTGGGGGAATATGGAACAGCAGATGGAAAATATTCAGCTTCTTATATTATTGGGAAGTTGTGTGATGTGGCAGAGGCCCACCTCA
          |      ||| ||| |  |||| || |||  |  ||  |||| | | ||   ||||||||||||||  |  ||||||||||||||||||||||||| |||||||||||||||||||| |||||||||||||| ||||||||||||||| ||| ||||||||||||||||||||  |
gtgattttaatttcctgttttcttcttatatcatactccgtaccatgttttctgtggtagattatgttgattcattctactttcagATAATATGCTGGGTTTTGGGAGAATATGGAACAGCAGATGGGAAATATTCAGCTTCATATATTATTGGGAAGCTGTATGATGTGGCAGAGGCCCACCCAA

upper sequence: GRMZM2G146697_T03 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA16G20260.1 (Glycine max), 3'ss of exon 6
-----------------------------------gtagttgttttc-cttgtcctatctattccagattatagtttcgggatattatatgttgattcatttcatgttcagATAATATGCTGGGTTTTGGGGGAATATGGAACAGCAGATGGAAAATATTCAGCTTCTTATATTATTGGGAAGTTGTGTGATGTGGCAGAGGCCCACCTCA
                                    ||  | |   | |||||  || || ||| ||     || |  |   | |   ||  |   |  |   |  | ||| |||| || |||||| ||||||||||||| ||||| |||||||| ||||| ||||| ||||| | ||||||| | |||||||| ||||||||  |    |
gtagtttctaactttctatcctttttttttatgttttatatttccccacttgtttta-cttttcaaggagtcagatctgtcttttagcataatatgtagtactaattacagGTAATCTGTTGGGTTCTGGGGGAATATGGCACAGCTGATGGAAAGTATTCTGCTTCCTATATCACTGGGAAGCTATGTGATGTTGCAGAGGCATATTCAA

upper sequence: GRMZM2G146697_T03 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA09G35240.1 (Glycine max), 3'ss of exon 6
-------------------------gtagttgttttccttgtcctatctattccagatt-atagtttcgggatattatatgttgattcatttcatgtt-----cagATAATATGCTGGGTTTTGGGGGAATATGGAACAGCAGATGGAAAATATTCAGCTTCTTATATTATTGGGAAGTTGTGTGATGTGGCAGAGGCCCACCTCA
                         | | ||    | ||  |  ||        | ||| | ||| |  | | | || |  || | ||  |   | ||     ||| | || || |||||| |||||||||||||||||| ||||||||| ||||| ||||| ||||| | ||||||||| |||||  | ||||||||  |   ||
gtactttctatcccacttatgctttggattttcccttctcattttactccgaagaaattgaaagtgtttgtagaata-actttaactctctaagtattgattgcagGTCATCTGTTGGGTTCTGGGGGAATATGGAACAGTAGATGGAAAGTATTCTGCTTCCTATATCAGTGGGAAGTTATGTGACATTGCAGAGGCATATTCCA

upper sequence: GRMZM2G146697_T03 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA01G35650.1 (Glycine max), 3'ss of exon 6
-------------------------gtagttgttttccttgtcctatctattccagattata---gttt--cgggata---ttatatgttga----ttcatttcatgtt-cagATAATATGCTGGGTTTTGGGGGAATATGGAACAGCAGATGGAAAATATTCAGCTTCTTATATTATTGGGAAGTTGTGTGATGTGGCAGAGGCCCACCTCA
                         | | ||    | || ||  ||        | |||| |   ||||    | |||   |||  | || |     | ||| ||  || ||| | || || |||||| |||||||||| ||||||||||||||||| ||||| ||||||||||| | ||||||||| |||||  | ||||||||  |   ||
gtactttatatcccacttatgctttggattttaccttctcgttttactctgaagaaattaaatgtgtttgttagaataactttaactctttaagtactgattgcaatttgcagGTCATCTGTTGGGTTCTGGGGGAATACGGAACAGCAGATGGAAAGTATTCTGCTTCTTATATCAGTGGGAAGTTATGTGACATTGCAGAGGCATATTCCA

upper sequence: GRMZM2G146697_T03 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA16G08320.1 (Glycine max), 3'ss of exon 6
-----------------------gtagttgttttc-cttgtcctatctattccagattatagtttcgggatattatatgttgattcatttcatgttcagATAATATGCTGGGTTTTGGGGGAATATGGAACAGCAGATGGAAAATATTCAGCTTCTTATATTATTGGGAAGTTGTGTGATGTGGCAGAGGCCCACCTCA
                        ||  | |   | |||||  || || ||| |||    || |  |   | |   ||  |   |  |      | ||| |||| || |||||| | ||||||||||| || || |||||||||||||| ||||| ||||| | ||||||| | |||||||| ||||||||  |    |
gtactttctatcccttttatgttttatatttccccacttgtttta-cttttcaagaagccagatctgtcttttagcataattcgtagtactgattacagGTAATCTGTTGGGTTCTTGGGGAATATGGCACTGCTGATGGAAAATATTCTGCTTCGTATATCACTGGGAAGCTATGTGATGTTGCAGAGGCATATTCAA

upper sequence: GRMZM2G146697_T03 (Zea mays), 3'ss of exon 7
lower sequence: AT1G31730.1 (Arabidopsis thaliana), 3'ss of exon 6
gtagttgttttccttgtcctatctattc-cagattatagtttcgggatattatatgttgattc----------atttcatgttcagATAATATGCTGGGTTTTGGGGGAATATGGAACAGCAGATGGAAAATATTCAGCTTCTTATATTATTGGGAAGTTGTGTGATGTGGCAGAGGCCCACCTCA
   |||| |||  || ||  |||| | | || |  ||  |||   |  |  |  | ||| |||           ||| |  ||||| | || |  ||||||||||| |||||||| ||||| ||||| |||||||| || || ||||||| ||| ||| |||| ||||||||||| ||  ||   |
---gttgattttgttctctgatctctccgcataccatttttttccgcaacgaatttttgtttcttactattgggtttaaacttcagGTCATTTCTTGGGTTTTGGGAGAATATGGCACAGCTGATGGGAAATATTCTGCCTCCTATATTAGTGGAAAGCTGTGCGATGTGGCAGATGCATACTCAA

upper sequence: GRMZM2G146697_T03 (Zea mays), 3'ss of exon 7
lower sequence: Vv02s0087g00690.t01 (Vitis vinifera), 3'ss of exon 7
-----------------------gtagttgttttccttgtcctatctattccag-attat------agtttcgggatattatat--gttgattcatttcatgttcagATAATATGCTGGGTTTTGGGGGAATATGGAACAGCAGATGGAAAATATTCAGCTTCTTATATTATTGGGAAGTTGTGTGATGTGGCAGAGGCCCACCTCA
                        || || | |   ||||  | |  ||    | |||||      |  |   |  |||||| |  |||| |   | | || | ||| | || || ||||||||||| || |||||||| || | |||||| ||||| ||||| ||||| | ||| ||||| ||||||||||||||||||||    |
gtacattctgttctatctggacactatttttgtcatttgttttctgcatgtaggcattattcacaaaactcttgtttattatcttagttgttggttctgatctacagGTTATTTGTTGGGTTTTGGGTGAGTATGGAACTGCGGGTGGAAAGTATTCTGCTTCCTATATCACTGGAAAGTTATGTGATGTGGCAGAGGCCCATTCAA

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|89762346|gb|DY689972.1|DY689972
EST:     CATATCTCCGCATTGTCGGAGAGCCAAAGCTTCCTTCTTCGTTTCTGCAG                         ATAATATGCTGGGTTTTGGGGGAATATGGAACAGC
genomic: CATATCTCCGCATTGTCGGAGAGCCAAAGCTTCCTTCTTCGTTTCTGCAGgtagttgttt ... tcatgttcagATAATATGCTGGGTTTTGGGGGAATATGGAACAGC
EST: gi|9952284|gb|BE638867.1|BE638867
EST:     CATATCTCCGCATTGTCGGAGAGCCAAAGCTTCCTTCTTCGTTTCTGCAG                         ATAATATGCTGGGTTTTGGGGGAATATGGAACAGCAGATGGAAAATATTCA
genomic: CATATCTCCGCATTGTCGGAGAGCCAAAGCTTCCTTCTTCGTTTCTGCAGgtagttgttt ... tcatgttcagATAATATGCTGGGTTTTGGGGGAATATGGAACAGCAGATGGAAAATATTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctattccagattatagtttcgggatattatatgttgattcatttcatgttcagATAATATGCTGGGTTTTGGGGGAATATGGAACAGCAGATGGAAAATATTCAGCTTCTTATATTATTGGGAAGTTGTGTGATGTGGCAGAGGCCCACCTCA
                                 tgttgat  putative branch site (score: 4)
                                       ttcatttc  CT-rich tract
                         atattatatgttgatt  TA-rich tract